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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ), 'gf_id' => 'HOM05D001016', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001016' ), 'data_identifier' => 'HOM05D001016', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001016', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '596', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p12600' => 'bna', 'A03p16550' => 'bna', 'A08p00610' => 'bna', 'A08p24700' => 'bna', 'A09p36380' => 'bna', 'A10p08090' => 'bna', 'Aa31LG10G6800' => 'aar', 'Aa31LG10G740' => 'aar', 'Aa31LG3G7320' => 'aar', 'Aa31LG7G10000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1861' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1468' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4010' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.84' => 'aag', 'Actinidia00912' => 'ach', 'Actinidia02553' => 'ach', 'Actinidia07704' => 'ach', 'Actinidia13760' => 'ach', 'Actinidia16232' => 'ach', 'Actinidia18323' => 'ach', 'Actinidia18521' => 'ach', 'Actinidia25539' => 'ach', 'Actinidia30609' => 'ach', 'Actinidia32818' => 'ach', 'Actinidia35180' => 'ach', 'Actinidia37352' => 'ach', 'Actinidia39581' => 'ach', 'Ah.02g114720' => 'amhyb', 'Ah.02g131110' => 'amhyb', 'Ah.04g161400' => 'amhyb', 'Ah.09g231770' => 'amhyb', 'Ah.11g046480' => 'amhyb', 'AL1G44020' => 'aly', 'AL1G63530' => 'aly', 'AL3G25360' => 'aly', 'AL4G30570' => 'aly', 'AL8G25020' => 'aly', 'Aqoxy1G00496' => 'aox', 'Aqoxy1G01687' => 'aox', 'Aqoxy5G03224' => 'aox', 'Aqoxy5G03225' => 'aox', 'arahy.Tifrunner.gnm1.ann1.24C55C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.615SKB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7Y9INW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E5U4BY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FP34HI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IZT7WB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY59Q5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QGLS4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QIUV73' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1W0Y7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z9YLBS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZF2NNQ' => 'arhy', 'AT1G30120' => 'ath', 'AT1G55510' => 'ath', 'AT2G34590' => 'ath', 'AT3G13450' => 'ath', 'AT5G50850' => 'ath', 'ATR0582G192' => 'atr', 'ATR0697G274' => 'atr', 'ATR1098G091' => 'atr', 'Atru.chr10.1195' => 'acertr', 'Atru.chr11.2398' => 'acertr', 'Atru.chr3.2066' => 'acertr', 'Atru.chr6.1887' => 'acertr', 'AUR62002726' => 'cqu', 'AUR62002730' => 'cqu', 'AUR62002731' => 'cqu', 'AUR62005688' => 'cqu', 'AUR62022407' => 'cqu', 'AUR62028870' => 'cqu', 'AUR62029539' => 'cqu', 'AUR62030181' => 'cqu', 'AUR62034803' => 'cqu', 'AUR62040896' => 'cqu', 'AUR62042164' => 'cqu', 'AUR62042624' => 'cqu', 'AUR62044302' => 'cqu', 'BcaB02g09524' => 'bca', 'BcaB03g12195' => 'bca', 'BcaB04g16954' => 'bca', 'BcaB05g24029' => 'bca', 'BcaB06g26303' => 'bca', 'BcaB07g32614' => 'bca', 'BcaC01g00156' => 'bca', 'BcaC01g01530' => 'bca', 'BcaC01g06060' => 'bca', 'BcaC02g11535' => 'bca', 'BcaC02g11536' => 'bca', 'BcaC03g14633' => 'bca', 'BcaC04g20790' => 'bca', 'BcaC05g27038' => 'bca', 'BolC2t08208H' => 'bol', 'BolC3t14329H' => 'bol', 'BolC3t19895H' => 'bol', 'BolC3t21588H' => 'bol', 'BolC4t23010H' => 'bol', 'BolC5t31617H' => 'bol', 'BolC9t56797H' => 'bol', 'BraA02t06318Z' => 'bra', 'BraA03t10942Z' => 'bra', 'BraA08t32118Z' => 'bra', 'BraA08t34425Z' => 'bra', 'BraA09t39162Z' => 'bra', 'BraSC35t45988Z' => 'bra', 'C02p20660' => 'bna', 'C03p19480' => 'bna', 'C03p76400' => 'bna', 'C03p92820' => 'bna', 'C04p14210' => 'bna', 'C04p14240' => 'bna', 'C04p14250' => 'bna', 'C05p28950' => 'bna', 'C09p39180' => 'bna', 'CAN.G151.5' => 'can', 'CAN.G27.13' => 'can', 'CAN.G270.1' => 'can', 'CAN.G293.13' => 'can', 'CAN.G293.14' => 'can', 'CAN.G293.15' => 'can', 'CAN.G553.16' => 'can', 'CAN.G65.110' => 'can', 'CAN.G68.10' => 'can', 'CAN.G758.16' => 'can', 'CAN.G880.3' => 'can', 'CANSAT11G1639' => 'cansat', 'CANSAT35G1281' => 'cansat', 'CANSAT88G0001' => 'cansat', 'CARHR029290' => 'chi', 'CARHR045180' => 'chi', 'CARHR088110' => 'chi', 'CARHR128690' => 'chi', 'CARHR257400' => 'chi', 'Carub.0001s2834' => 'cru', 'Carub.0001s4400' => 'cru', 'Carub.0004s1627' => 'cru', 'Carub.0008s1084' => 'cru', 'Ca_06510_v3' => 'car', 'Ca_13821_v3' => 'car', 'Ca_18175_v3' => 'car', 'Ca_22565_v3' => 'car', 'Ca_29707_v3' => 'car', 'CBR_g23057' => 'cbr', 'CBR_g23058' => 'cbr', 'Cc01_g00240' => 'ccan', 'Cc03_g15970' => 'ccan', 'Cc04_g09560' => 'ccan', 'Cc05_g10200' => 'ccan', 'Cc11_g17430' => 'ccan', 'CDE01G0568' => 'cde', 'CDE02G0665' => 'cde', 'CDE02G1986' => 'cde', 'CDE05G0325' => 'cde', 'CDE09G1096' => 'cde', 'CDE12G0131' => 'cde', 'Cfa000933' => 'cfa', 'Cfa009416' => 'cfa', 'Cfa009543' => 'cfa', 'Cfa025240' => 'cfa', 'Ciclev10015440m.g' => 'ccl', 'Ciclev10015660m.g' => 'ccl', 'Ciclev10031662m.g' => 'ccl', 'CiPaw.05G104500' => 'cil', 'CiPaw.06G107100' => 'cil', 'CiPaw.09G122500' => 'cil', 'CiPaw.10G090900' => 'cil', 'CiPaw.10G091000' => 'cil', 'CiPaw.13G178500' => 'cil', 'ClCG03G006760' => 'cla', 'ClCG03G014630' => 'cla', 'ClCG06G001850' => 'cla', 'COL.COLO4_16676' => 'col', 'COL.COLO4_31054' => 'col', 'COL.COLO4_35079' => 'col', 'Cpa.g.sc119.29' => 'cpa', 'Cpa.g.sc123.56' => 'cpa', 'Cpa.g.sc246.2' => 'cpa', 'Cpa.g.sc4.131' => 'cpa', 'Cpa.g.sc4.132' => 'cpa', 'Cpa.g.sc99.65' => 'cpa', 'Cre03.g194200' => 'cre', 'Cre06.g311050' => 'cre', 'Cre16.g677026' => 'cre', 'CsaV3_1G032330' => 'csa', 'CsaV3_1G041530' => 'csa', 'CsaV3_4G018780' => 'csa', 'CsaV3_6G007900' => 'csa', 'CsaV3_UNG010110' => 'csa', 'CSS0003349' => 'camsi', 'CSS0004220' => 'camsi', 'CSS0004471' => 'camsi', 'CSS0009254' => 'camsi', 'CSS0032400' => 'camsi', 'CSS0032774' => 'camsi', 'CSS0033947' => 'camsi', 'CSS0035333' => 'camsi', 'CSS0036432' => 'camsi', 'CSS0037096' => 'camsi', 'CSS0038894' => 'camsi', 'CSS0041065' => 'camsi', 'CSS0045496' => 'camsi', 'CSS0049387' => 'camsi', 'DCAR_001966' => 'dca', 'DCAR_003906' => 'dca', 'DCAR_003907' => 'dca', 'DCAR_007886' => 'dca', 'DCAR_007887' => 'dca', 'DCAR_026253' => 'dca', 'Dinv05313' => 'din', 'Dinv11211' => 'din', 'Dinv17227' => 'din', 'Dinv26662' => 'din', 'Dinv30760' => 'din', 'Dinv30762' => 'din', 'Dinv32238' => 'din', 'Duzib168G1887' => 'dzi', 'Duzib192G0341' => 'dzi', 'Duzib205G0081' => 'dzi', 'Duzib235G1429' => 'dzi', 'Duzib248G0777' => 'dzi', 'Duzib251G0722' => 'dzi', 'ECA233G3989' => 'eca', 'ECA234G4093' => 'eca', 'ECA234G4142' => 'eca', 'ECA238G3960' => 'eca', 'ECA246G1795' => 'eca', 'EL10Ac2g03726' => 'bvu', 'EL10Ac4g10392' => 'bvu', 'EL10Ac5g11340' => 'bvu', 'EL10Ac6g13575' => 'bvu', 'EL10Ac8g19663' => 'bvu', 'Eucgr.E01909' => 'egr', 'Eucgr.F02506' => 'egr', 'Eucgr.H03385' => 'egr', 'Eucgr.J01753' => 'egr', 'FAN07G1303' => 'fan', 'FAN11G0472' => 'fan', 'FAN11G1963' => 'fan', 'FAN12G1873' => 'fan', 'FAN12G3202' => 'fan', 'FAN16G1622' => 'fan', 'FAN16G2647' => 'fan', 'FAN17G2638' => 'fan', 'FAN21G0989' => 'fan', 'FAN21G2759' => 'fan', 'FAN25G0750' => 'fan', 'FAN25G1184' => 'fan', 'FvH4_3g05390' => 'fve', 'FvH4_3g45860' => 'fve', 'FvH4_4g23110' => 'fve', 'Glyma.01G103100' => 'gma', 'Glyma.02G294500' => 'gma', 'Glyma.03G070200' => 'gma', 'Glyma.05G141000' => 'gma', 'Glyma.08G096300' => 'gma', 'Glyma.14G020200' => 'gma', 'Glyma.14G092100' => 'gma', 'Glyma.14G186900' => 'gma', 'Glyma.17G231400' => 'gma', 'Gohir.A01G021600' => 'ghi', 'Gohir.A03G150900' => 'ghi', 'Gohir.A05G000800' => 'ghi', 'Gohir.A05G147900' => 'ghi', 'Gohir.A06G138500' => 'ghi', 'Gohir.A06G196650' => 'ghi', 'Gohir.A06G196700' => 'ghi', 'Gohir.A12G140700' => 'ghi', 'Gohir.D01G020000' => 'ghi', 'Gohir.D02G173900' => 'ghi', 'Gohir.D02G173950' => 'ghi', 'Gohir.D05G001100' => 'ghi', 'Gohir.D05G150366' => 'ghi', 'Gohir.D05G150432' => 'ghi', 'Gohir.D06G143200' => 'ghi', 'Gohir.D06G204200' => 'ghi', 'Gohir.D12G145300' => 'ghi', 'Gorai.002G022500' => 'gra', 'Gorai.005G195600' => 'gra', 'Gorai.008G156700' => 'gra', 'Gorai.009G001000' => 'gra', 'Gorai.009G154500' => 'gra', 'Gorai.010G167000' => 'gra', 'Gorai.010G238200' => 'gra', 'GSVIVG01000944001' => 'vvi', 'GSVIVG01008607001' => 'vvi', 'GSVIVG01021512001' => 'vvi', 'GSVIVG01025496001' => 'vvi', 'GSVIVG01026353001' => 'vvi', 'GSVIVG01035509001' => 'vvi', 'HanXRQChr01g0024141' => 'han', 'HanXRQChr03g0065921' => 'han', 'HanXRQChr04g0114361' => 'han', 'HanXRQChr06g0175031' => 'han', 'HanXRQChr08g0210171' => 'han', 'HanXRQChr10g0300291' => 'han', 'HanXRQChr12g0362361' => 'han', 'HanXRQChr14g0437161' => 'han', 'HanXRQChr16g0525591' => 'han', 'HanXRQChr17g0551991' => 'han', 'HanXRQChr17g0553001' => 'han', 'HanXRQChr17g0564651' => 'han', 'Haze_05616' => 'cav', 'Haze_12475' => 'cav', 'Haze_22928' => 'cav', 'Haze_26364' => 'cav', 'Hma1.2p1_0093F.1_g046940' => 'hma', 'Hma1.2p1_0256F.1_g103310' => 'hma', 'Hma1.2p1_1533F.1_g289370' => 'hma', 'HPP92_001887' => 'vpl', 'HPP92_003185' => 'vpl', 'HPP92_019523' => 'vpl', 'Hund02478' => 'sun', 'Hund06120' => 'sun', 'Hund21454' => 'sun', 'Hund21544' => 'sun', 'Lalb_Chr04g0257121' => 'lal', 'Lalb_Chr07g0187621' => 'lal', 'Lalb_Chr12g0206901' => 'lal', 'Lalb_Chr12g0209531' => 'lal', 'Lalb_Chr13g0293861' => 'lal', 'Lalb_Chr18g0060371' => 'lal', 'Lj1g0011850' => 'lja', 'Lj1g0026080' => 'lja', 'Lj1P1190T21' => 'lonja', 'Lj2P303T12' => 'lonja', 'Lj3C1075T3' => 'lonja', 'Lj3g0021477' => 'lja', 'Lj4g0002862' => 'lja', 'Lj5A91G47' => 'lonja', 'Lj6C834G7' => 'lonja', 'Lj6g0021095' => 'lja', 'Lj6g0024917' => 'lja', 'Lj9A731G44' => 'lonja', 'Lj9P196T8' => 'lonja', 'Lsat_1_v5_gn_2_48100' => 'lsa', 'Lsat_1_v5_gn_3_31601' => 'lsa', 'Lsat_1_v5_gn_4_101' => 'lsa', 'Lsat_1_v5_gn_4_29381' => 'lsa', 'Lsat_1_v5_gn_7_28120' => 'lsa', 'Lsat_1_v5_gn_8_146120' => 'lsa', 'Manes.08G103800' => 'mes', 'Manes.09G185400' => 'mes', 'Manes.15G110600' => 'mes', 'Manes.15G122600' => 'mes', 'Manes.17G071300' => 'mes', 'Mapoly0008s0179' => 'mpo', 'Mapoly0052s0126' => 'mpo', 'Mapoly0105s0021' => 'mpo', 'MBI05_g14869_MAGBIO' => 'mbi', 'MBI07_g24756_MAGBIO' => 'mbi', 'MBI11_g05459_MAGBIO' => 'mbi', 'MBI14_g14179_MAGBIO' => 'mbi', 'MBI18_g24472_MAGBIO' => 'mbi', 'MBI18_g25440_MAGBIO' => 'mbi', 'MCO04G233' => 'mco', 'MCO04G250' => 'mco', 'MD00G1047300' => 'mdo', 'MD03G1002200' => 'mdo', 'MD05G1282600' => 'mdo', 'MD07G1216500' => 'mdo', 'MD10G1260900' => 'mdo', 'MD11G1002200' => 'mdo', 'MD13G1125300' => 'mdo', 'MD13G1216400' => 'mdo', 'MD16G1126100' => 'mdo', 'Medtr3g076630' => 'mtr', 'Medtr4g021470' => 'mtr', 'Medtr7g005380' => 'mtr', 'Medtr7g009250' => 'mtr', 'Medtr7g009290' => 'mtr', 'Medtr7g009310' => 'mtr', 'MELO3C002746.2' => 'cme', 'MELO3C015564.2' => 'cme', 'MELO3C022343.2' => 'cme', 'Migut.D01297' => 'egut', 'Migut.D01762' => 'egut', 'Migut.D02576' => 'egut', 'Migut.K00991' => 'egut', 'Migut.M00657' => 'egut', 'Migut.O00356' => 'egut', 'MSTRG.12851' => 'ama', 'MSTRG.14272' => 'ama', 'MSTRG.18034' => 'ama', 'MSTRG.22888' => 'ama', 'MSTRG.7495' => 'ama', 'MSTRG.8036' => 'ama', 'MSTRG.9343' => 'ama', 'Nitab4.5_0000011g0220' => 'nta', 'Nitab4.5_0000033g0110' => 'nta', 'Nitab4.5_0000348g0010' => 'nta', 'Nitab4.5_0000854g0040' => 'nta', 'Nitab4.5_0001108g0020' => 'nta', 'Nitab4.5_0001451g0080' => 'nta', 'Nitab4.5_0001513g0010' => 'nta', 'Nitab4.5_0001958g0030' => 'nta', 'Nitab4.5_0002068g0030' => 'nta', 'Nitab4.5_0003681g0010' => 'nta', 'Nitab4.5_0008296g0010' => 'nta', 'Nitab4.5_0008296g0020' => 'nta', 'Nitab4.5_0011303g0010' => 'nta', 'Nitab4.5_0013079g0010' => 'nta', 'Nn1g06174' => 'nnu', 'Nn3g16344' => 'nnu', 'Nn3g20468' => 'nnu', 'Nn3g20469' => 'nnu', 'Nn4g22207' => 'nnu', 'Nn7g35831' => 'nnu', 'Nn8g40138' => 'nnu', 'Oeu012410.1' => 'oeu', 'Oeu012718.1' => 'oeu', 'Oeu030647.1' => 'oeu', 'Oeu035872.2' => 'oeu', 'Oeu052363.1' => 'oeu', 'Oeu058433.1' => 'oeu', 'Oeu061114.2' => 'oeu', 'Os03g0645100' => 'osa', 'Os07g0170100' => 'osa', 'Os08g0536000' => 'osa', 'Os09g0509200' => 'osa', 'Os12g0616900' => 'osa', 'Peaxi162Scf00128g01759' => 'pax', 'Peaxi162Scf00200g01316' => 'pax', 'Peaxi162Scf00317g00114' => 'pax', 'Peaxi162Scf00358g01214' => 'pax', 'Peaxi162Scf00394g00118' => 'pax', 'Peaxi162Scf00491g00075' => 'pax', 'Peaxi162Scf01064g00243' => 'pax', 'Peaxi162Scf01122g00020' => 'pax', 'PGR031G1194' => 'pgr', 'PGR102G0806' => 'pgr', 'PGR119G0581' => 'pgr', 'PGR119G1992' => 'pgr', 'PGSC0003DMG400007488' => 'stu', 'PGSC0003DMG400025407' => 'stu', 'PGSC0003DMG400026943' => 'stu', 'PGSC0003DMG400031370' => 'stu', 'PGSC0003DMG401004334' => 'stu', 'Phvul.006G165600' => 'pvu', 'Phvul.008G000800' => 'pvu', 'Phvul.010G017700' => 'pvu', 'Potri.001G061400' => 'ptr', 'Potri.003G166400' => 'ptr', 'Potri.003G222800' => 'ptr', 'Potri.004G129800' => 'ptr', 'Potri.017G076500' => 'ptr', 'Pp3c20_14980' => 'ppa', 'Pp3c20_1720' => 'ppa', 'Pp3c23_14900' => 'ppa', 'Pp3c24_19300' => 'ppa', 'Pp3c8_21910' => 'ppa', 'PRCOL_00002687' => 'pco', 'PRCOL_00003595' => 'pco', 'PRCOL_00005038' => 'pco', 'PRCOL_00006904' => 'pco', 'Prupe.1G220200' => 'ppe', 'Prupe.4G082200' => 'ppe', 'Prupe.6G002000' => 'ppe', 'Psat0s1880g0240' => 'psa', 'Psat7g082880' => 'psa', 'Psat7g237440' => 'psa', 'PSO017G5581' => 'pso', 'PSO017G5599' => 'pso', 'PSO017G6714' => 'pso', 'PSO161G0047' => 'pso', 'PSO384G1207' => 'pso', 'PSO478G1784' => 'pso', 'PSO478G2083' => 'pso', 'PSO478G3690' => 'pso', 'PSO541G5613' => 'pso', 'PSO675G8635' => 'pso', 'QL01p010535' => 'qlo', 'QL01p010541' => 'qlo', 'QL03p050662' => 'qlo', 'QL05p057475' => 'qlo', 'QL10p001321' => 'qlo', 'QL10p001336' => 'qlo', 'RcHm_v2.0_Chr4g0429431' => 'rch', 'RcHm_v2.0_Chr5g0014341' => 'rch', 'RcHm_v2.0_Chr5g0083951' => 'rch', 'RcHm_v2.0_Chr6g0248831' => 'rch', 'Rhsim08G0194600' => 'rsi', 'Rhsim12G0178300' => 'rsi', 'Rhsim13G0114500' => 'rsi', 'Rhsim13G0114600' => 'rsi', 'Rhsim13G0234000' => 'rsi', 'Sabra01G0044200' => 'sbr', 'Sabra03G0121800' => 'sbr', 'Sabra03G0165700' => 'sbr', 'Sabra04G0087800' => 'sbr', 'Sabra17G0068500' => 'sbr', 'SalBow2G1836' => 'sbo', 'SalBow5G0745' => 'sbo', 'SalBow6G6196' => 'sbo', 'SalBow8G3585' => 'sbo', 'SalBow8G3613' => 'sbo', 'Sc04g0000360' => 'sci', 'Sc04g0000370' => 'sci', 'Sc09g0007490' => 'sci', 'Sc10g0003180' => 'sci', 'Sc11g0000240' => 'sci', 'Sed0002747' => 'sed', 'Sed0004585' => 'sed', 'Sed0007894' => 'sed', 'Sed0008695' => 'sed', 'SEGI_00381' => 'sgi', 'SEGI_07536' => 'sgi', 'SEGI_24528' => 'sgi', 'SEGI_39714' => 'sgi', 'SEGI_40402' => 'sgi', 'SGA_v2.0_scaffold130G34239' => 'sas', 'SGA_v2.0_scaffold40G15590' => 'sas', 'SGA_v2.0_scaffold40G15630' => 'sas', 'SGA_v2.0_scaffold4G02138' => 'sas', 'SGA_v2.0_scaffold6G03349' => 'sas', 'SGA_v2.0_scaffold74G24713' => 'sas', 'SHI04150' => 'shi', 'SHI24902' => 'shi', 'SMO144G0156' => 'smo', 'SMO171G0025' => 'smo', 'SMO201G0019' => 'smo', 'SMO201G0028' => 'smo', 'SMO201G0070' => 'smo', 'SMO353G0346' => 'smo', 'Solyc01g028900.3' => 'sly', 'Solyc03g097680.4' => 'sly', 'Solyc04g008590.3' => 'sly', 'Solyc05g024160.3' => 'sly', 'Solyc06g072580.3' => 'sly', 'Solyc08g016750.3' => 'sly', 'Sopen01g017080' => 'spe', 'Sopen03g028430' => 'spe', 'Sopen04g003750' => 'spe', 'Sopen05g018850' => 'spe', 'Sopen06g028930' => 'spe', 'Sopen08g007290' => 'spe', 'Sp1g25980' => 'spa', 'Sp1g41120' => 'spa', 'Sp3g11660' => 'spa', 'Sp4g16860' => 'spa', 'Sp6g12990' => 'spa', 'TAR369G0521' => 'tar', 'TAR371G0470' => 'tar', 'TAR374G1560' => 'tar', 'TAR622G0806' => 'tar', 'TAR624G0005' => 'tar', 'TAR624G0510' => 'tar', 'TAR626G0024' => 'tar', 'THA.LOC104808262' => 'tha', 'THA.LOC104810316' => 'tha', 'THA.LOC104812671' => 'tha', 'THA.LOC104814305' => 'tha', 'THA.LOC104822695' => 'tha', 'THA.LOC104825031' => 'tha', 'THA.LOC104825476' => 'tha', 'Thecc.02G197500' => 'tca', 'Thecc.03G136400' => 'tca', 'Thecc.03G136500' => 'tca', 'Thecc.06G148900' => 'tca', 'Thecc.09G197600' => 'tca', 'Thhalv10007796m.g' => 'esa', 'Thhalv10011610m.g' => 'esa', 'Thhalv10013888m.g' => 'esa', 'Thhalv10016731m.g' => 'esa', 'Thhalv10021009m.g' => 'esa', 'TPR.G15623' => 'tpr', 'TPR.G5560' => 'tpr', 'TPR.G9515' => 'tpr', 'TPR.G9587' => 'tpr', 'TWI09G0448' => 'twi', 'TWI18G0358' => 'twi', 'TWI36G0355' => 'twi', 'TWI53G0035' => 'twi', 'TWI60G0604' => 'twi', 'TWI75G1287' => 'twi', 'unitig_0.g1256' => 'ugi', 'unitig_22.g5857' => 'ugi', 'unitig_26.g9292' => 'ugi', 'unitig_61.g26376' => 'ugi', 'unitig_61.g26377' => 'ugi', 'unitig_62.g23082' => 'ugi', 'vmacro03332' => 'vma', 'vmacro04259' => 'vma', 'vmacro04268' => 'vma', 'vmacro08074' => 'vma', 'vmacro16738' => 'vma', 'vmacro19155' => 'vma', 'VMungo0331G1935' => 'vmu', 'VMungo0540G0687' => 'vmu', 'VMungo1383G1552' => 'vmu', 'Zm00001eb031900' => 'zma', 'Zm00001eb036940' => 'zma', 'Zm00001eb050410' => 'zma', 'Zm00001eb084130' => 'zma', 'Zm00001eb102550' => 'zma', 'Zm00001eb117100' => 'zma', 'Zm00001eb317910' => 'zma' ) $gf_id = 'HOM05D001016' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001016' ) $data_identifier = 'HOM05D001016' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 4, 'ach' => (int) 13, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 13, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 6, 'can' => (int) 11, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 3, 'csa' => (int) 5, 'camsi' => (int) 14, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 3, 'gma' => (int) 9, 'ghi' => (int) 17, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 6, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 3, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 8, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 3, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 4, 'ppe' => (int) 3, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb317910' $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